[vast align]: VAST-TOOLS v2.5.1
[vast align]: Species assembly: mm10, VASTDB Species key: Mm2
[vast align]: VASTDB Version: vastdb.mm2.23.06.20
[vast align]: Input RNA-seq file(s): /nfs/no_backup/jvalcarcel/emancini/anieto/SRR5264037_1.fastq.gz and /nfs/no_backup/jvalcarcel/emancini/anieto/SRR5264037_2.fastq.gz
[vast align]: Most common read lengths detected for fq1 & fq2: 101 (100.00%) and 101 (100.00%)
[vast align]: Sample name: SRR5264037_1 
[vast align]: Using VASTDB -> /nfs/users/mirimia/projects/vast-tools/VASTDB/Mm2
[vast align]: Setting output directory to vast_out
[vast align]: Setting tmp directory..
[vast align]: Set tmp directory to /nfs/no_backup/jvalcarcel/emancini/anieto/vast_out/tmp!
# reads processed: 500000
# reads with at least one reported alignment: 215792 (43.16%)
# reads that failed to align: 267423 (53.48%)
# reads with alignments suppressed due to -m: 16785 (3.36%)
Reported 215792 alignments to 1 output stream(s)
[vast align]:    fraction of first reads mapping to fwd / rev strand : 0.4943 / 0.5057
# reads processed: 500000
# reads with at least one reported alignment: 213149 (42.63%)
# reads that failed to align: 270158 (54.03%)
# reads with alignments suppressed due to -m: 16693 (3.34%)
Reported 213149 alignments to 1 output stream(s)
[vast align]:    fraction of second reads mapping to fwd / rev strand : 0.4967 / 0.5033
[vast align]: Mapping RNAseq reads against mRNA sequences
[vast align]: Calculating cRPKMs
[vast trim]: Total processed reads: 18293509
[vast trim]: Total valid fwd reads: 18293509
# reads processed: 18293509
# reads with at least one reported alignment: 10990852 (60.08%)
# reads that failed to align: 6132299 (33.52%)
# reads with alignments suppressed due to -m: 1170358 (6.40%)
Reported 10990852 alignments to 1 output stream(s)
[vast align]: Trimming RNAseq reads to 50 nt sequences
[vast trim]: Total processed reads: 18293509
[vast trim]: Total valid fwd reads: 18293509
[vast trim]: Total valid rev reads: 18293509
[vast align]: Doing genome subtraction
# reads processed: 109761054
# reads with at least one reported alignment: 58224998 (53.05%)
# reads that failed to align: 34452838 (31.39%)
# reads with alignments suppressed due to -m: 17083218 (15.56%)
Reported 58224998 alignments to 1 output stream(s)
[vast align]: Mapping reads to the "splice site-based" (aka "a posteriori") EEJ library and Analyzing...
# reads processed: 34452838
# reads with at least one reported alignment: 5670848 (16.46%)
# reads that failed to align: 28534736 (82.82%)
# reads with alignments suppressed due to -m: 247254 (0.72%)
Reported 5670848 alignments to 1 output stream(s)
[vast align]: Mapping reads to the "transcript-based" (aka "a priori") SIMPLE EEJ library and Analyzing...
# reads processed: 34452838
# reads with at least one reported alignment: 922828 (2.68%)
# reads that failed to align: 33520131 (97.29%)
# reads with alignments suppressed due to -m: 9879 (0.03%)
Reported 922828 alignments to 1 output stream(s)
[vast align]: Mapping reads to the "transcript-based" (aka "a priori") MULTI EEJ library and Analyzing...
# reads processed: 34452838
# reads with at least one reported alignment: 1236773 (3.59%)
# reads that failed to align: 33189973 (96.33%)
# reads with alignments suppressed due to -m: 26092 (0.08%)
Reported 1236773 alignments to 1 output stream(s)
[vast align]: Mapping reads to microexon EEJ library and Analyzing...
# reads processed: 34452838
# reads with at least one reported alignment: 110331 (0.32%)
# reads that failed to align: 34320372 (99.62%)
# reads with alignments suppressed due to -m: 22135 (0.06%)
Reported 110331 alignments to 1 output stream(s)
[vast align]: Mapping reads to intron retention library (version 2)...
# reads processed: 109761054
# reads with at least one reported alignment: 8212831 (7.48%)
# reads that failed to align: 101185227 (92.19%)
# reads with alignments suppressed due to -m: 362996 (0.33%)
Reported 8212831 alignments to 1 output stream(s)
# reads processed: 109761054
# reads with at least one reported alignment: 1277705 (1.16%)
# reads that failed to align: 107382972 (97.83%)
# reads with alignments suppressed due to -m: 1100377 (1.00%)
Reported 1277705 alignments to 1 output stream(s)
[vast align]: Cleaning SRR5264037_1-50.fa.gz files!
[vast align]: Cleaning up SRR5264037_1-50-e.fa.gz!
[vast align]: Deleting temporary files with reverse-complemented reads.
[vast align]: Completed Sat Jan 29 19:35:58 2022